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Merge probability matrix into SpatialExperiment object.

Source: R/merge_pm_spe.R
mergeHoodSpe.Rd

Merge probability matrix into SpatialExperiment object.

Usage

mergeHoodSpe(spe, pm, val_names = NULL)

Arguments

spe

A SpatialExperiment object.

pm

Probability matrix. Can be obtained by the function mergeByGroup.

val_names

Character vector with length of the ncol of pm.

Value

A SpatialExperiment object. Cell-level neighborhood information are saved in the colData of the SpatialExperiment object.

Examples


data("spe_test")

spe <- readHoodData(spe, anno_col = "celltypes")

fnc <- findNearCells(spe, k = 100)

pm <- scanHoods(fnc$distance)
#> Tau is set to: 22747.4

pm2 <- mergeByGroup(pm, fnc$cells)

spe <- mergeHoodSpe(spe, pm2)